Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.15.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87664	0.586
27DAP/17DAP	1.23308	0.801
39DAP/27DAP	1.12784	0.755
41DAP/39DAP	0.89394	0.659
42DAP/41DAP	1.01615	0.997
43DAP/42DAP	1.13076	1
47DAP/43DAP	1.51792	0.527
52DAP/47DAP	1.30307	0.651
57DAP/52DAP	1.09638	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07471	0.46
17DAP/reference	1.17635	0.021
27DAP/reference	0.95959	0.552
39DAP/reference	0.99752	0.921
41DAP/reference	1.16656	0.073
42DAP/reference	0.86389	0.026
43DAP/reference	1.00084	0.861
47DAP/reference	1.03429	0.989
52DAP/reference	1.66402	0.302
57DAP/reference	0.88639	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06649	1
27DAP/17DAP	1.01795	1
39DAP/27DAP	1.23624	0.512
41DAP/39DAP	0.84631	0.333
42DAP/41DAP	1.24173	0.487
43DAP/42DAP	1.03097	0.746
47DAP/43DAP	0.98202	0.923
52DAP/47DAP	1.1169	0.666
57DAP/52DAP	0.9554	0.705
57DAP/7DAP	0.89524	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07733	0.393
17DAP/reference	0.98324	0.518
27DAP/reference	0.9556	0.303
39DAP/reference	1.00393	1
41DAP/reference	1.03001	0.791
42DAP/reference	1.0157	1
43DAP/reference	1.10616	0.212
47DAP/reference	0.99078	0.671
52DAP/reference	0.95039	0.213
57DAP/reference	0.99117	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01165	1
17DAP/reference	0.943	0.422
27DAP/reference	0.94478	0.407
39DAP/reference	0.87258	0.214
41DAP/reference	0.7976	0.11
42DAP/reference	0.82983	0.098
43DAP/reference	1.16228	0.562
47DAP/reference	1.01199	0.812
52DAP/reference	1.07297	0.498
57DAP/reference	1.07244	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98284	0.566
17DAP/reference	1.05777	0.728
27DAP/reference	1.0515	0.596
39DAP/reference	0.9991	0.889
41DAP/reference	0.96169	0.331
42DAP/reference	0.8612	0.032
43DAP/reference	0.78759	0.137
47DAP/reference	0.9943	0.593
52DAP/reference	1.089	0.705
57DAP/reference	0.71673	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08722	0.966
26DAP/20DAP	0.97034	1
34DAP/26DAP	0.68913	0.261
51DAP/34DAP	0.52257
52DAP/51DAP	0.94069	1
53DAP/52DAP	1.32033	0.034
55DAP/53DAP	1.01989	0.981
57DAP/55DAP	1.14251	0.231
62DAP/57DAP	1.27009	0.217
68DAP/62DAP	0.67375	0.109
68DAP/14DAP	0.85	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70482	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	2.99411
WT/WTpooled	1.05201	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	N/A	N/A

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18779	0.894
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09861	1
DC3000/delta hrp 24h	0.97488	0.808

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24661
DC3000 delta B/DC3000 delta AB	45.0662	0.193

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.81026	0.699
Exp 60h	N/A	N/A

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.94565	1
Var 0h	0.97893
Var 12h I row2-row1	0.92052	0.295
Var 12h NI row2-row1	1.06514	1
Var 36h I row2-row1	0.91405	0.805
Var 36h NI row2-row1	0.95202	0.852
Var 60h I row2-row1	1.03626	1
Var 60h NI row2-row1	1.01596	1
Time course 0hI-0hNI	1.20883	0.852
Time course 12hI-12hNI	0.94947	0.738
Time course 36hI-36hNI	0.65396	0.024
Time course 60hI-60hNI	0.72847	0.015

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	5.58402	1
transgenic ySAMdc/azygous control (breaker)	4.05088	0.248
transgenic ySAMdc/azygous control (red)	1.36241	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07461	0.071

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5755	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95468	1
Manapal/WT (break)	1.0979	1
Manapal/WT (red)	0.97389	0.863